Isolation, identification and characterization of indigenous lactic acid ...

International Food Research Journal 24(1): 428-436 (February 2017) Journal homepage: http://www.ifrj.upm.edu.my

Isolation, identification and characterization of indigenous lactic acid bacteria for flavour improvement 1

Farahani, Z., 1*Rasooli, I. and 2Owlia, P.

Department of Biology, Shahed University, Tehran-Qom Express way, Tehran-3319118651, Iran 2 Department of Microbiology, School of Medicine, Shahed University, Tehran, Iran

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Article history

Abstract

Received: 29 September 2015 Received in revised form: 23 May 2016 Accepted: 6 June 2016

The presence of lactic acid bacteria (LAB) in fermented foods improves the health safety of food. Flavour development in dairy fermentations rises from a series of biochemical processes, and to restore the unique characteristics of traditional dairy varieties is to evaluate new wild LAB strains being isolated from good quality raw-milk. In order to study LAB biodiversity and to evaluate their potential use, bovine milk samples were collected from different regions of Iran. A total of 26 LAB were isolated from the milk samples. The bacterial isolates were evaluated for autolysis, proteolysis, acidification and diacetyl production. Six LAB isolates were found to bear the best characteristics. These were applied to produce types of curds. The curds were tested for aroma and the best curd samples were identified by molecular techniques. Finally two new Enterococcus faecium subspecies were registered at GenBank data library of National Center for Biotechnology Information (NCBI). Rich biodiversity of natural environments can be considered as good sources of new LAB species or strains. The different combinations of strains LAB in cheese manufacturing can influence dairy products flavour, and acid production, autolysis, proteolysis and production of diacetyl can be considered for their use as starters or adjuncts.

Keywords Lactic acid bacteria Aroma; Acidification Proteolysis Autolysis Diacetyl production

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Introduction Taste and aroma are very important features of cheese and consumers make their choice primarily on the basis of flavour characteristics (Singh et al., 2003). Developing culture and enzyme technologies that result in consistent rapid development of cheese varieties with specific characteristic flavours, is the long term goal of this area of research (Steele et al., 2013). The use of bacterial strains for cheese ripening with enhanced flavour production is promising in order to respond to the demand for products with improved aroma characteristics (Marilley et al., 2004). Micro-organisms, particularly lactic acid bacteria (LAB) are important in dairy products. LAB are a group of Gram-positive, non-spore forming, cocci or rods, that excrete lactic acid as the main fermentation product into the medium if supplied with suitable carbohydrate (Kopermsub and Yunchalard, 2010). Traditionally, LAB have been defined by the formation of lactic acid as the main product from carbohydrate metabolism (Beresford et al., 2001). LAB are used in making starter culture for the production of fermented foods, such as yoghurt and cheese (Karna et al., 2007; All, 2011). Several studies focused on the characterisation of cheeseassociated LAB (Giraffa et al., 2001; Aquilanti et *Corresponding author. Email: [email protected]

al., 2006; Piraino et al., 2008) for their ability to improve flavour, texture (Ayad et al., 2001) and for safety of perishable raw materials such as milk, meat and vegetables. Comparing the odour properties of raw-milk cheeses with those of cheeses made from pasteurised milk indicated that milk indigenous microflora were determinant factors of the specific sensory properties of raw-milk cheeses (Callon et al., 2005). The organoleptic characteristics found in rawmilk cheeses is very much dependent on the microbiota and LAB occur naturally as a native microbiota in raw-milk which greatly contributes to its differences (Abriouel et al., 2008). Raw milk may contain a wide variety of LAB which may have interesting features for application in cheese, though they may not survive the cheese manufacturing process. Hence, isolation from milk, rather than ripened cheeses, may have the advantage of giving a higher choice of selection both in terms of species and strains. Development of aroma in cheese products results from the metabolic activities of bacteria, acidification, autolytic activity, proteolytic activity and diacetyl production are some of the most important technological characterisation in cheese making and flavour (Sarantinopoulos et al., 2001; Smit et al., 2005; Grattepanche et al., 2007; Coolbear et al., 2008). One strategy to restore the unique characteristics of traditional cheese varieties

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is to evaluate new wild LAB strains being isolated from good quality raw-milk for use as starters, which could increase biodiversity as well as improving the flavour (Peláez and Requena, 2005). Starter cultures used for the production of fermented dairy products play a key role in final product quality with respect to preservation, organoleptic quality and nutritional value. The impact on product quality is highly strain dependent and is caused by differences between strains with respect to the presence and activity of metabolic pathways (Van Hylckama Vlieg and Hugenholtz, 2007). The present study aims at isolation of LAB strains from raw bovine milk and evaluation of the potential of these isolates to improve flavour of curd or cheese. Materials and Methods Milk sampling Six raw bovine milk samples were collected from highly regarded producers in Iran of which four were in Araak, one in Semnan and one in Isfahan cities. Freshly collected milk samples were immediately transported to the laboratory under hygienic conditions at 4ºC (All, 2011). In order to maintain initial raw milk microbial popula¬tion and to inhibit growth of psychrotrophic bacteria extended cold storage of raw milk was avoided (Samaržija et al., 2012). The samples were immediately subjected to microbiological analysis. Enumeration and isolation of microorganisms Milk samples were homogenised and serially diluted in 0.1% peptone water (Grattepanche et al., 2007). As the LAB group includes both mesophilic and thermophilic species (Zannini et al., 2005), dilutions were plated and incubated as follows: (i) Under microaerophilic conditions on Man-Rogosa and Sharpe (MRS) agar (Merck KGaA) for 2 days at 30°C and 45°C for mesophilic and thermophilic LAB rods respectively. (ii) Under aerobic conditions on M17 agar plates (Medium for lactic Streptococci) for two days at 30°C for mesophilic LAB cocci; (iii) Under microaerophilic conditions on M17 agar for 2 days at 45°C for thermophilic LAB cocci; (iv) Aerobically on Slanetz-Bartley agar for 2 days at 37°C for enterococci (Kopermsub and Yunchalard, 2010). Total bacterial count (TBC) was obtained on plate count agar (PCA) added with 1g/L skimmed milk, aerobically incubated at 30°C for 24 h (Franciosi et al., 2009; Akpinar et al., 2011). Colonies showing different morphologies with the various types of culture media (Khunajakr et al., 2008) were analyzed by Gram’s staining and catalase test. Colonies

from each countable plate were isolated for each morphologically different colony type. The colonies with the Gram-positive and catalase-negative characteristics (Khunajakr et al., 2008; Pang et al., 2011) and red colonies appearing on Slanetz-Bartley agar (Højberg et al., 2005) were purified by successive sub-culturing on M17, MRS and kanamycin aesculin agar (for enterococci) (KAA, HiMedia Laboratories Pvt. Ltd.). The purity was checked microscopically and stock cultures were maintained in glycerol at –70°C (Poznanski et al., 2004). Acidification potential LAB cultures were grown to OD600 nm of 0.5. Six mL from each culture was centrifuged at 8000×g for 5 min, washed with peptone water and inoculated in 10 mL 3% fat ultra-high temperature (UHT) milk. They were then incubated at their optimal growth temperatures on MRS agar (30 and 45°C), M17 agar (30 and 45°C) and KA agar (37 °C). The pH was measured at 2h intervals during the first 8h and thereafter at 24 h and 48 h post inoculation (Franciosi et al., 2009). Autolytic activity Six mL LAB cultures were centrifuged at OD600nm of 0.8–1 at 8000×g for 5 min, washed with potassium phosphate buffer (50 mmol/L, pH=6.5) and resuspended in the same buffer to attain OD nm=0.6–0.8 and were then incubated at 37°C for 48h. The degree of autolysis was expressed as the percentage decrease of the OD600nm after 48 h (Mora et al., 2003). Proteolytic activity Proteolysis is probably the most important biochemical event during the ripening of most cheese varieties, with a major impact on flavour and texture. Techniques have been developed that permit quantitation of the principal ripening agents to proteolysis. For determination of proteolytic activity, LAB suspensions, prepared as autolytic activity, were spotted onto an agar medium (composition of 10% (w/v) skim milk powder and 2% (w/v) agar) and incubated at the optimal growth temperature for 4 days, and a clear zone around each colony was an indication to this phenomenon (Franciosi et al., 2009). Diacetyl production LAB were inoculated in UHT milk as described above. After incubation for 24 h at their optimal temperature, 1 mL of each cell suspension was added with 0.5 mL of a solution α-naphthol (1%, w/v) and


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KOH (16%, w/v) and incubated at 30°C. Diacetyl generation is indicated by the formation of a red ring at the top of the tubes (Franciosi et al, 2009).

BLASTP using the default setting without a filter. The molecular classification of these isolated strains was determined by 16S rDNA sequence analysis.

Odour intensity (sniffing) assay The selected strains, singly or in combinations, were inoculated in full fat UHT milk. Pre-acidification or ripening of milk with starter culture brings about lower pH at renneting is lower than the natural pH of milk. The lower pH results in solubilization of colloidal calcium phosphate but little dissociation of casein (Lucey et al., 2003). The odour intensity test (Klein et al., 2001) was carried out after 3 days of incubation at the optimal growth temperatures. After 3 days of incubation at the optimal growth temperature, an odour analysis survey was conducted by involving 14 students randomly selected from Shahed University dormitory. The 14 assessor sensory panel was asked to score the intensity of odours using a three-level scale (unpleasant = –, moderate = +, pleasant = ++). The panelists were habitual consumers of traditional raw cow milk cheeses.

Results

Extraction of genome and 16SrRNA analysis Bacterial isolates from pleasant odour samples were selected for molecular identification. The bacterial cells from pure cultures were grown overnight in LB (Luria-Bertani) broth. 1.5 mL from the bacterial suspensions were centrifuged at 5000 × g for 3 min and the pellets were resuspended in HTE (HCl Tris EDTA) buffer. The genomic DNA was extracted according to the protocol of Sambrook and Russell (2001). The 16S rRNA gene sequence coding region was amplified by PCR performed in a PCR thermal cycler with the prokaryotic 16S ribosomal DNA universal primers i.e. F: AGAGTTTGATCCTGGCTC and R: ACGGCTACCTTGTTACGA. PCR reactions were performed in 30 μL volumes containing 0.5 μL DNA polymerase, 3 μL 10xPCR buffer, 18.5 μL D.D.W, 1 μL Primer Forward, 1 μL Primer Reverse, 2 μL MgCl2, 2 μL dNTP mix, 2 μL DNA Template. PCR products were purified with Low Melting Point Agarose and kit (Bioneer). The PCR product sequences were determined with genetic sequencer. Sequence similarity searches were performed in the GenBank data library of NCBI (National Center for Biotechnology Information). The isolates were identified by comparing the sequences with known sequences in GenBank using a BLAST (Basic Local Alignment Search Tools) program in the National Center for Biotechnology Information (NCBI) nucleotide database (http://www.ncbi.nlm.nih.gov/). The percent sequence identity was determined by

Microbial cell counts on specific culture media are given in Table 1. A total of 26 isolates were screened on specific culture media (MRS agar, M17 agar and KA agar) based on the morphology of the colonies. The LAB strains isolated on specific culture media were morphologically different. Four isolates (Nos. 1-4) were selected from M17 medium at 30oC. Six isolates (No. 5-10) were selected from M17 medium at 45oC. A single isolate (No. 12) was selected from MRS medium at 30oC and two isolates (Nos. 11 and 13) were selected from MRS medium at 45oC. Thirteen isolates (Nos. 14-26) were selected from KA medium at 37oC. Acidification findings showed that during the first 24 h the enterococci isolated on Kanamycin Aesculin agar (KA agar) were more effective than the other LAB in decreasing milk pH (Figure 1). Isolate No. 25 was the strongest acidifier LAB after 24 hours (Figure 1). The highest autolytic activity was seen in isolates Nos. 6, 8, 23, 25 (Figure 2). The isolate No. 8 (Enterococcus faecium) possessed the highest autolytic activity in raw milk. Isolate No. 26 did not grow well and was therefore excluded from this parameter. The presence of a clear zone around an isolate was indication of proteolytic activity. Six isolates (1, 2, 3, 4, 18, 26) exhibited this feature of which, number 4 had the highest proteolytic activity. The flavour compound, diacetyl, generated as an end product of citrate metabolism by certain LAB was at 5 levels of high, medium, low, very low and none (Table 2). At the end of the technological characterization, finally 6 isolates (4, 8, 23, 24, 25, 26) were selected and the odour test was performed. The strains abilities to impart odour to milk during fermentation was evaluated by odour intensity assay. General odour intensity was ranked by the 14 assessors and the rankings were summed for each strain. Isolate 4 was rejected and the isolates 8, 23, 24, 25 and 26 were selected as pleasant. The results from odour intensity test the combinations of isolates, summarised in Table 5, led to the selection of a mixture of 4+8+25 as giving the most pleasant cheese. These isolates were analyzed by molecular techniques. The genome of isolates Nos. 4, 8 and 25 were extracted and 16S rRNA genes were amplified by PCR. A blast search at NCBI indicated that the

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Table 1. Enumeration of microorganisms (log cfu.mL-1) in raw milk samples using specific culture mediaa

Medium abbreviations: M17, medium for lactic streptococci; MRS, Man–Rogosa and Sharpe; PCA, plate count agar. a

Figure 1. Changes in pH of raw milk after incubation for 24 hours at optimal growth temperatures

strains were Enterococcus faecium. Strains 4 and 25 were registered as two new subspecies, Enterococcus faecium subsp. Shahedfarahani and Enterococcus faecium subsp. Farahanirasooli, accession numbers HM583338.1 and HM854854.1 respectively. Discussion The results of the routine microbiological assays on various culture media showed quantitative data on microbial diversity of raw cows’ milk. The results (Table 1) show that LAB dominated the bacterial population in the milk samples. These findings are in agreement with the observations reported in different batches of Alberquilla cheese (Abriouel et al., 2008) and in traditional Greek cheeses (Asteri et al., 2009) showing that LAB composed the main microflora in all the tested samples. The plate counts showed dominance of LAB cocci over LAB rods (Table 1). More Lactococci than Lactobacilli populations has also been reported in Tetilla raw cows-milk cheeses (Menéndez et al., 2001). It was shown that the majority of the isolates belonged to the genera Lactococcus and Leuconostoc in Galicia raw cows’ milk cheeses (Garabal et al., 2008). It was found that in enumeration of cheese microbial community the

Figure 2. Autolytic activity of isolates after 48 h of incubation as a proportion of a control (The activity was calculated by dividing the initial OD of the bacterial suspension in potassium phosphate buffer by the OD taken after 48 hours. The degree of autolysis was expressed as the percentage decrease of the OD600nm after 48 hours. The smaller the test/control, the greater is the autolytic activity)

number of LAB grown on MRS agar were greater than those on M17 and that Lactobacillus was the most dominant genus. The enterococci were isolated on Kenner Fecal (KF) agar medium with Enterococcus faecium in larger number than the others (Abriouel et al., 2008). The mesophilic lactococci were dominant over thermophilic cocci and the mesophilic rods were dominant over thermophilic rods (Wouters et al., 2002; Franciosi et al., 2009). Among the Lactobacilli, nearly all were characterized as mesophilic in raw cows’ milk cheeses produced in Galicia (Garabal et al., 2008). In the present study the isolates 4, 8 and 25 belong to mesophilic and thermophilic species indicating importance of both mesophilic (Albenzio et al., 2001) and thermophilic (Peláez and Requena, 2005) LAB in curd or cheese flavour and aroma. Acidification of milk is an important step and predominant in curd formation from cheese manufacturing (Grattepanche et al., 2007). Our results showed that during the first 24 h, milk pH decreased and the Enterococcus faecium (isolate No. 25) was the most effective species (Franciosi et al.,


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Table 2. Diacetyl production by LAB isolated from raw cow milk

The levels were defined as formation of a red ring at the top of the tubes in 3 minutes